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      Soil microbial community structure and functionality changes in response to long‐term metal and radionuclide pollution

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          Summary

          Microbial communities are essential for a healthy soil ecosystem. Metals and radionuclides can exert a persistent pressure on the soil microbial community. However, little is known on the effect of long‐term co‐contamination of metals and radionuclides on the microbial community structure and functionality. We investigated the impact of historical discharges of the phosphate and nuclear industry on the microbial community in the Grote Nete river basin in Belgium. Eight locations were sampled along a transect to the river edge and one location further in the field. Chemical analysis demonstrated a metal and radionuclide contamination gradient and revealed a distinct clustering of the locations based on all metadata. Moreover, a relation between the chemical parameters and the bacterial community structure was demonstrated. Although no difference in biomass was observed between locations, cultivation‐dependent experiments showed that communities from contaminated locations survived better on singular metals than communities from control locations. Furthermore, nitrification, a key soil ecosystem process seemed affected in contaminated locations when combining metadata with microbial profiling. These results indicate that long‐term metal and radionuclide pollution impacts the microbial community structure and functionality and provides important fundamental insights into microbial community dynamics in co‐metal‐radionuclide contaminated sites.

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          UPARSE: highly accurate OTU sequences from microbial amplicon reads.

          Amplified marker-gene sequences can be used to understand microbial community structure, but they suffer from a high level of sequencing and amplification artifacts. The UPARSE pipeline reports operational taxonomic unit (OTU) sequences with ≤1% incorrect bases in artificial microbial community tests, compared with >3% incorrect bases commonly reported by other methods. The improved accuracy results in far fewer OTUs, consistently closer to the expected number of species in a community.
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            A history of research on the link between (micro)aggregates, soil biota, and soil organic matter dynamics

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                Author and article information

                Contributors
                kmijnend@sckcen.be
                Journal
                Environ Microbiol
                Environ Microbiol
                10.1111/(ISSN)1462-2920
                EMI
                Environmental Microbiology
                John Wiley & Sons, Inc. (Hoboken, USA )
                1462-2912
                1462-2920
                20 January 2021
                March 2021
                : 23
                : 3 ( doiID: 10.1111/emi.v23.3 )
                : 1670-1683
                Affiliations
                [ 1 ] Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN Mol Belgium
                [ 2 ] Center for Microbial Ecology and Technology (CMET), UGent Ghent Belgium
                [ 3 ] Biosphere Impact Studies, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN Mol Belgium
                Author notes
                [*] [* ] For correspondence. E‐mail kmijnend@ 123456sckcen.be ; Tel.: (+32) 14 33 21 06.

                [†]

                Current address: VU University Medical Center, Epidemiology and Biostatistics, Amsterdam, The Netherlands.

                [‡]

                Current address: Centre Etudes Nucléaires de Bordeaux Gradignan, CENBG, Bordeaux, France.

                Author information
                https://orcid.org/0000-0002-7734-3103
                https://orcid.org/0000-0002-2801-1110
                Article
                EMI15394
                10.1111/1462-2920.15394
                8048617
                33415825
                2462cbf9-5628-4869-a7a8-5bd857ae4627
                © 2021 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc-nd/4.0/ License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.

                History
                : 09 December 2020
                : 11 September 2020
                : 04 January 2021
                Page count
                Figures: 6, Tables: 0, Pages: 14, Words: 11595
                Funding
                Funded by: Federal Agency of Nuclear Control (FANC)
                Award ID: Gamma spectrometry
                Funded by: SCK CEN
                Award ID: PhD Grant
                Categories
                Research Article
                Research Articles
                Custom metadata
                2.0
                March 2021
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.0.2 mode:remove_FC converted:15.04.2021

                Microbiology & Virology
                Microbiology & Virology

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